Prototheca microalgae, although still considered uncommon etiologic agents, represent an insidious intruder, threatening cattle herd health and determining productive losses. Increasing numbers of clinical cases globally identified would indicate these microalgae as emerging pathogens. They can be isolated from a wide variety of environmental and non-environmental sources, due also to their ability to produce biofilm. This ability to spread and contaminate a huge variety of substrates, as well as the high resistance to elevated temperatures, renders Prototheca prevention a very hard task. In addition, early infection signs are subtle and difficult to detect. The poor response to conventional antimycotic drugs represents an additional challenge when facing this infection. Although it would seem unrealistic to completely eradicate the exposure risk of cows to these microalgae, the adoption of proper on-farm protocols and management, with the highest attention to hygiene measures, would be beneficial in reducing the magnitude of this problem. Keeping the attention focused on early diagnosis, together with the development of new, alternative, and effective agents and formulations, would be strongly advised to prevent, treat, and control Prototheca infections.